st.gallen: Function to compute the St Gallen consensus criterion for...
In bhklab/genefu: Computation of Gene Expression-Based Signatures in Breast Cancer

st.gallen

R Documentation

Function to compute the St Gallen consensus criterion for prognostication

Description

This function computes the updated St Gallen consensus criterions as published by Goldhirsh et al 2003.

Usage

st.gallen(size, grade, node, her2.neu, age, vascular.inv, na.rm = FALSE)

Arguments

`size`	tumor size in cm.
`grade`	Histological grade, i.e. low (1), intermediate (2) and high (3) grade.
`node`	Nodal status (0 or 1 for no lymph node invasion a,d at least 1 invaded lymph ode respectively).
`her2.neu`	Her2/neu status (0 or 1).
`age`	Age at diagnosis (in years).
`vascular.inv`	Peritumoral vascular invasion (0 or 1).
`na.rm`	TRUE if missing values should be removed, FALSE otherwise.

Value

Vector of risk predictions: "Good", "Intermediate", and "Poor".

References

Goldhirsh A, Wood WC, Gelber RD, Coates AS, Thurlimann B, and Senn HJ (2003) "Meeting highlights: Updated international expert consensus on the primary therapy of early breast cancer", Journal of Clinical Oncology, 21(17):3357-3365.

Examples

# load nkis dataset
data(nkis)

# compute St Gallen predictions
st.gallen(size=demo.nkis[ ,"size"], grade=demo.nkis[ ,"grade"],
  node=demo.nkis[ ,"node"], her2.neu=sample(x=0:1, size=nrow(demo.nkis),
  replace=TRUE), age=demo.nkis[ ,"age"], vascular.inv=sample(x=0:1,                                                                                                           
  size=nrow(demo.nkis), replace=TRUE), na.rm=TRUE)

bhklab/genefu documentation built on Nov. 30, 2024, 9:03 p.m.